Sort   by:  
 Page size 
TranscriptomicsSingle-Base Resolution Methylomes of Silkworms and Functional Importance of Gene Methylation in Insects Revealed by Ultra-High-Throughput Sequencing
Single-base resolution DNA methylomes have been accomplished for both Arabidopsis and human cells which have high genome methylation levels by Illumina ultra-high-throughput bisulfite sequencing technology (MethylC-Seq). Here by combining MethylC-Seq and biological replicate strategies we generated ...
ORGANISM(S): Bombyx mori 
2010-04-09 | E-GEOD-18315 | biostudies-arrayexpress
TranscriptomicsBase-resolution analyses of parent-of-origin and sequence dependent allele specific DNA methylation in the mouse genome (RNA-seq)
Allele specific DNA methylation (ASM) is crucial for genomic imprinting and mammalian development. Here we present a base-resolution, genome-wide allelic DNA methylation map for both CG and non-CG sites in the mouse brain. We found parent-of-origin dependent (imprinted) ASM at 1,952 CGs which form 5...
ORGANISM(S): Mus musculus 
2012-02-15 | E-GEOD-33468 | biostudies-arrayexpress
ProteomicsComplete list of canonical post-transcriptional modifications in Bacillus subtilis ribosome.
Using bottom-up oligonucleotide LC-MS/MS in combination with stable isotope labeling, chemical derivatization, and bioinformatics variable modification search, a total of 25 modifications were mapped to the sequences of 16S and 23S RNA in B. subtilis. 10 modification sites, previously identified by ...
ORGANISM(S): Bacillus subtilis PY79 Bacteria 
2024-08-06 | PXD050367 | Pride
Pseudouridine Base and ribose methylations Rna modifications Ribosomal rna 
GenomicsHighly integrated single base resolution maps of the epigenome in Arabidopsis
Whole genome shotgun bisulfite sequencing, small RNA sequencing and transcriptome sequencing of wildtype Arabidopsis plants (Col-0), and met1, drm1 drm2 cmt3, and ros1 dml2 dml3 null mutants using the Illumina Genetic Analyzer. A comparison was performed with regions of the genome containing cytosin...
ORGANISM(S): Arabidopsis thaliana 
2008-04-20 | E-GEOD-10877 | biostudies-arrayexpress
TranscriptomicsRNA-Seq of mRNA derived from fourth larval stage larvae from C. elegans strain PE1328 treated for 16 hours at 20 degrees Celsius with 5-Ph-IAA compared to untreated controls
The objective of the experiment was to determine the impact of cap-adjacent 2'-O-ribose methylation on steady-state mRNA levels in a background lacking the decapping exonculease EOL-1. We depleted CMTR-1 protein, which is the main enzyme responsible for of cap-adjacent 2'-O-ribose methylation in C. ...
ORGANISM(S): Caenorhabditis elegans 
2026-03-05 | E-MTAB-16687 | biostudies-arrayexpress
GenomicsGenome-wide profiling of DNA methylation in two Arabidopsis ecotypes and their reciprocal hybrids - Bisulfite-seq
Heterosis is a fundamental biological phenomenon characterized by the superior performance of a hybrid over its parents in many traits, but the underlying molecular basis remains elusive. To investigate whether DNA methylation plays a role in heterosis, we compared at single base-pair resolution th...
ORGANISM(S): Arabidopsis thaliana 
2011-12-22 | E-GEOD-34657 | biostudies-arrayexpress
TranscriptomicsAllele-specific Methylation of Human Placental Tissue
In this study, we screened human placental samples for allele-specific methylation and subsequently novel imprinted genes associated with these regions. We used reduced representation bisulfite sequencing to identify partially methylated CpG islands (CGIs) in the human placental genome. We were able...
ORGANISM(S): Homo sapiens 
2013-10-09 | E-GEOD-40955 | biostudies-arrayexpress
GenomicsEssential role of poly(ADP-ribosyl)ation in cocaine action
Many of the long-term effects of cocaine on the brain's reward circuitry have been shown to be mediated by alterations in gene expression. Several chromatin modifications, including histone acetylation and methylation, have been implicated in this regulation, but the effect of other histone modifica...
ORGANISM(S): Mus musculus 
2014-02-20 | E-GEOD-55136 | biostudies-arrayexpress
GenomicsChromatin States in Human ES Cells Reveal Key Regulatory Sequences and Genes Involved in Pluripotency and Self-renewal
Human embryonic stem cells (hESCs) are offering a new therapeutic approach because of their unique ability to proliferate indefinitely in vitro and differentiate into multiple cell types. However, our understanding of the molecular mechanisms of pluripotency and self-renewal remain incomplete. To el...
ORGANISM(S): Homo sapiens 
2009-10-14 | E-GEOD-18292 | biostudies-arrayexpress
TranscriptomicsGenome-wide profiling of DNA methylation in two Arabidopsis ecotypes and their reciprocal hybrids - mRNA-seq
Heterosis is a fundamental biological phenomenon characterized by the superior performance of a hybrid over its parents in many traits, but the underlying molecular basis remains elusive. To investigate whether DNA methylation plays a role in heterosis, we compared at single base-pair resolution th...
ORGANISM(S): Arabidopsis thaliana 
2011-12-22 | E-GEOD-34655 | biostudies-arrayexpress
Sort   by:  
 Page size